1ks4

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[[Image:1ks4.gif|left|200px]]
 
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{{Structure
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==The structure of Aspergillus niger endoglucanase-palladium complex==
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|PDB= 1ks4 |SIZE=350|CAPTION= <scene name='initialview01'>1ks4</scene>, resolution 2.5&Aring;
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<StructureSection load='1ks4' size='340' side='right'caption='[[1ks4]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
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|SITE=
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== Structural highlights ==
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|LIGAND= <scene name='pdbligand=PD:PALLADIUM+ION'>PD</scene>
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<table><tr><td colspan='2'>[[1ks4]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Aspergillus_niger Aspergillus niger]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KS4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1KS4 FirstGlance]. <br>
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|ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Cellulase Cellulase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.4 3.2.1.4] </span>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.5&#8491;</td></tr>
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|GENE=
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PD:PALLADIUM+ION'>PD</scene></td></tr>
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|DOMAIN=
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1ks4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ks4 OCA], [https://pdbe.org/1ks4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ks4 RCSB], [https://www.ebi.ac.uk/pdbsum/1ks4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ks4 ProSAT]</span></td></tr>
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|RELATEDENTRY=[[1ks5|1KS5]]
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</table>
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ks4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ks4 OCA], [http://www.ebi.ac.uk/pdbsum/1ks4 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1ks4 RCSB]</span>
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== Function ==
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}}
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[https://www.uniprot.org/uniprot/O74705_ASPNG O74705_ASPNG]
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ks/1ks4_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1ks4 ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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The fungus Aspergillus niger is a main source of industrial cellulase. beta-1,4-Endoglucanase is the major component of cellulase from A. niger. In spite of widespread applications, little is known about the structure of this enzyme. Here, the structure of beta-1,4-endoglucanase from A. niger (EglA) was determined at 2.1 A resolution. Although there is a low sequence identity between EglA and CelB2, another member of family 12, the three-dimensional structures of their core regions are quite similar. The structural differences are mostly found in the loop regions, where CelB2 has an extra beta-sheet (beta-sheet C) at the non-reducing end of the binding cleft of the native enzyme. Incubation of EglA with PdCl(2) irreversibly inhibits the EglA activity. Structural studies of the enzyme-palladium complex show that three Pd(2+) ions bind to each EglA molecule. One of the Pd(2+) ions forms a coordinate covalent bond with Met118 S(delta) and the nucleophilic Glu116 O(epsilon1) at the active site of the enzyme. The other two Pd(2+) ions bind on the surface of the protein. Binding of Pd(2+) ions to EglA does not change the general conformation of the backbone of the protein significantly. Based on this structural study, one can conclude that the palladium ion directly binds to and blocks the active site of EglA and thus inactivates the enzyme.
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'''The structure of Aspergillus niger endoglucanase-palladium complex'''
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Determination of the structure of an endoglucanase from Aspergillus niger and its mode of inhibition by palladium chloride.,Khademi S, Zhang D, Swanson SM, Wartenberg A, Witte K, Meyer EF Acta Crystallogr D Biol Crystallogr. 2002 Apr;58(Pt 4):660-7. Epub 2002, Mar 22. PMID:11914491<ref>PMID:11914491</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 1ks4" style="background-color:#fffaf0;"></div>
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==Overview==
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==See Also==
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The fungus Aspergillus niger is a main source of industrial cellulase. beta-1,4-Endoglucanase is the major component of cellulase from A. niger. In spite of widespread applications, little is known about the structure of this enzyme. Here, the structure of beta-1,4-endoglucanase from A. niger (EglA) was determined at 2.1 A resolution. Although there is a low sequence identity between EglA and CelB2, another member of family 12, the three-dimensional structures of their core regions are quite similar. The structural differences are mostly found in the loop regions, where CelB2 has an extra beta-sheet (beta-sheet C) at the non-reducing end of the binding cleft of the native enzyme. Incubation of EglA with PdCl(2) irreversibly inhibits the EglA activity. Structural studies of the enzyme-palladium complex show that three Pd(2+) ions bind to each EglA molecule. One of the Pd(2+) ions forms a coordinate covalent bond with Met118 S(delta) and the nucleophilic Glu116 O(epsilon1) at the active site of the enzyme. The other two Pd(2+) ions bind on the surface of the protein. Binding of Pd(2+) ions to EglA does not change the general conformation of the backbone of the protein significantly. Based on this structural study, one can conclude that the palladium ion directly binds to and blocks the active site of EglA and thus inactivates the enzyme.
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*[[Glucanase 3D structures|Glucanase 3D structures]]
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== References ==
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==About this Structure==
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<references/>
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1KS4 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Aspergillus_niger Aspergillus niger]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KS4 OCA].
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__TOC__
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</StructureSection>
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==Reference==
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Determination of the structure of an endoglucanase from Aspergillus niger and its mode of inhibition by palladium chloride., Khademi S, Zhang D, Swanson SM, Wartenberg A, Witte K, Meyer EF, Acta Crystallogr D Biol Crystallogr. 2002 Apr;58(Pt 4):660-7. Epub 2002, Mar 22. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11914491 11914491]
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[[Category: Aspergillus niger]]
[[Category: Aspergillus niger]]
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[[Category: Cellulase]]
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[[Category: Large Structures]]
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[[Category: Single protein]]
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[[Category: Khademi S]]
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[[Category: Khademi, S.]]
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[[Category: Meyer EF]]
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[[Category: Meyer, E. F.]]
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[[Category: Swanson SM]]
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[[Category: Swanson, S. M.]]
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[[Category: Wartenberg A]]
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[[Category: Wartenberg, A.]]
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[[Category: Witte C]]
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[[Category: Witte, C.]]
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[[Category: Zhang D]]
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[[Category: Zhang, D.]]
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[[Category: (alpha/alpha)6]]
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[[Category: aspergillus niger]]
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[[Category: cellulase]]
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[[Category: endoglucanase]]
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[[Category: family 9]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 21:52:44 2008''
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Current revision

The structure of Aspergillus niger endoglucanase-palladium complex

PDB ID 1ks4

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